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9sat

Monoclonal Antibodies from COVID-19 Convalescent Patients Target Cryptic Epitopes for Universal SARS-CoV-2 Neutralization

Method: X-RAY DIFFRACTION D_max: 103.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9sat
deposition_date	2025-08-07
title	Monoclonal Antibodies from COVID-19 Convalescent Patients Target Cryptic Epitopes for Universal SARS-CoV-2 Neutralization
keywords	Immune complex, SARS-CoV-2, receptor binding domain, neutralizing antibody, VIRAL PROTEIN; VIRAL PROTEIN
method	X-RAY DIFFRACTION

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	30.46 Å
rg_electron	30.30 Å
i0	78052700.00
molecular_weight	68848.0 kDa
excluded_volume	85638 Å³
envelope_volume	109130 Å³
shell_volume	31866 Å³
envelope_diameter	104.1 Å
shell_rg	35.68 Å
envelope_rg	30.16 Å
shape_rg	30.30 Å
total_rg	30.80 Å
total_atoms	4842
n_residues	627
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	103.2 Å
rg_real	30.67 Å
rg_real_error	0.81 Å
i0_real	7.8050e+07
i0_real_error	1.3100e+06
rg_reciprocal	30.58 Å
i0_reciprocal	78050000.0000
total_estimate	0.8527
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	31.8 Å
skewness	0.524
kurtosis	-0.276
angular_range	— – 0.2600 Å⁻¹
current_alpha	0.0000
highest_alpha	10330000.0000
n_real_points	53
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.791; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.872; Smooth: 0.836

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	TAU-1109 Fab Heavy Chain
formula_weight	24067.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H
atom_count	5097

QVQLVQSGPEVKKPGASVKVSCKASGYTFTSYSINWVRQAPGQGLEWMGWISTYNGNTNYAQRLQGRVTMTTDTSTGTAHMELRSLRSDDTAIYYCAREEPLYCSGGSCYEFQHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	TAU-1109 Fab Light Chain
formula_weight	23679.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

EIVLTQSPARLSLSPGERATLSCRASQSVSSDLAWYQQKPGQAPRLLIYDASHRATGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQQRINWPPIFTFGPGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	Spike protein S1
formula_weight	29422.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	R

RVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFGGRLEVLFQGPGSAWSHPQFEKGGGSGGGGSGGSAWSHPQFEK

Source

organism	Severe acute respiratory syndrome coronavirus 2
ncbi_taxonomy_id	2697049
host_organism	Drosophila melanogaster

Entity 4 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	3

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	252

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6. Citations (1)

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length_a	83.264 Å
length_b	102.996 Å
length_c	225.499 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	I 21 21 21
int_tables_number	24
crystal_system	—

resolution	2.560 Å
resolution_low	93.690 Å
r_factor	0.2331
r_work	0.2309
r_free	0.2753

fit	/app/data/saxs_computation/sa/9sat/9sat.fit
pddf	/app/data/pr_computation/sa/9sat/9sat.pr.out
profile	/app/data/saxs_computation/sa/9sat/9sat.dat

Monoclonal Antibodies from COVID-19 Convalescent Patients Target Cryptic Epitopes for Universal SARS-CoV-2 Neutralization

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Entity 5 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)